Basic Information
VIS ID
TVIS30004557
Fusion event
HIV-SMG1P2 integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr16
Cytoband
p11.2
Reference genome
GRCh37/hg19
Start
29573945/29562624 (Hg38)
End
29573945/29562624 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
SMG1P2
Nearest miRNA
hsa-mir-1225/Upstream/603963; hsa-mir-11401/Downstream/36555;
Nearest TSS
ENST00000527434/Upstream/56625; ENST00000436527/Downstream/100355;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/78647, chr16-CpG: 103/Downstream/32019
Upstream sequence
ATTATCATCTACCACATGCAAGGCATGCCTCCACTAGAAAGGTAGCAAACCACAACTTTTCTCCCCTTATTTTTTAATCACAAGAACAAGCACACAATAG
Downstream sequence
TGAATACTATTAGTATATTAACAATGCCTTTAAAAACTAGATTTTTgctgggcgaggtggctcttccctgtaattacccagcactttggaagggcaaggc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate